Sequence
atgc intronic sequence ATGC exonic sequence...ttgcacatgcttttagtatggaacagcgcacgcaatctagtaataattaatctaaaaaatcacacggtaaaaaatattcgttcccgctgatcccgcgcagGCCGACGTTCTACCGCGTGTACCGCAAGAAGTCGACGGAGGGGTTCCAGTCGACCCCGTACGTGGTGACGCTGTTCAGCTGCATGCTGTGGATCTTCTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G872392_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g30910.1 (Oryza sativa), 3'ss of exon 2
-ttgcacatgcttttagtatggaacagcgcac-gcaatctagtaataattaatctaaaaaatcacacggtaaaaaatattcgttcccgctgatcccgcgcagGCCGACGTTCTACCGCGTGTACCGCAAGAAGTCGACGGAGGGGTTCCAGTCGACCCCGTACGTGGTGACGCTGTTCAGCTGCATGCTGTGGATCTTCTAC
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cagacgaaagaaactgctgttagctagtttgttgataactaattattagcaggttgaacaataacttaaccgtgtgtgcatgcgtgcgtt--tggcgtgcagGCCGACGTTCTACCGGGTGTACCGGAAGAAGTCGACGGAGGGGTTCCAGTCGACGCCGTACGTGGTGACGCTCTTCAGCTGCATGCTGTGGATGTACTACMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|149098019|gb|EE183966.2|EE183966EST: TTTTGCTTTGCAGGTAACATAATCTCGCTGATGGTGTTCCTTTCGCCGCT GCCGACGTTCTACCGCGTGTACCGCAAGAAGTCGACGGAGGGGTTCCAGTC
genomic: TTTTGCTTTGCAGGTAACATAATCTCGCTGATGGTGTTCCTTTCGCCGCTgtaagtaact ... tcccgcgcagGCCGACGTTCTACCGCGTGTACCGCAAGAAGTCGACGGAGGGGTTCCAGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaatctaaaaaatcacacggtaaaaaatattcgttcccgctgatcccgcgcagGCCGACGTTCTACCGCGTGTACCGCAAGAAGTCGACGGAGGGGTTCCAGTCGACCCCGTACGTGGTGACGCTGTTCAGCTGCATGCTGTGGATCTTCTAC
taaaaaatattcgtt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcacatgcttttagtatggaacagcgcacgcaatctagtaataattaatctaaaaaatcacacggtaaaaaatattcgttcccgctgatcccgcgcagGCCGACGTTCTACCGCGTGTACCGCAAGAAGTCGACGGAGGGGTTCCAGTCGACCCCGTACGTGGTGACGCTGTTCAGCTGCATGCTGTGGATCTTCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - -catgctt
- - - - - - - - - - - - - -gcacgca
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat